RStudio Geospatial

RStudio Server with geospatial packages and AI development tools for the CyVerse Discovery Environment.

Based on the Rocker-Project.org Docker RStudio geospatial container with additional configuration for CyVerse Kubernetes orchestration.

Quick Launch

Version	Launch
latest

Features

AI Development Tools

• Claude Code - Anthropic AI coding assistant (claude)
• Gemini CLI - Google AI CLI (gemini)
• OpenAI Codex - OpenAI coding assistant (codex)
• Node.js - JavaScript runtime for AI tools

Development Tools

• GitHub CLI (gh) - Command-line tool for GitHub operations
• RStudio Server - Full-featured R IDE

Geospatial R Packages

• sf - Simple features for R
• terra - Spatial data analysis
• raster - Raster data handling
• rgdal - Geospatial data abstraction
• rgeos - Geometry operations
• sp - Classes and methods for spatial data
• leaflet - Interactive maps
• mapview - Interactive viewing of spatial data
• tmap - Thematic maps

tidyverse Ecosystem

• tidyverse - dplyr, ggplot2, tidyr, readr, purrr, tibble, stringr, forcats
• RMarkdown - Document generation
• Shiny - Interactive web applications

CyVerse Integration

• GoCommands (gocmd) - CyVerse data transfer utilities
• nginx reverse proxy - Kubernetes compatibility

System Utilities

• Monitoring - htop, glances for system monitoring
• Build tools - gcc, development essentials
• GDAL/GEOS/PROJ - Geospatial libraries

Run Locally

# Pull the container
docker pull harbor.cyverse.org/vice/rstudio/geospatial:latest

# Run the container
docker run -it --rm -p 8787:80 -e REDIRECT_URL=http://localhost:8787 harbor.cyverse.org/vice/rstudio/geospatial:latest

Access RStudio at: http://localhost:8787

Default credentials:

• Username: rstudio
• Password: rstudio1

To set a custom password:

docker run -it --rm -p 8787:80 -e PASSWORD=yourpassword -e REDIRECT_URL=http://localhost:8787 harbor.cyverse.org/vice/rstudio/geospatial:latest

With mounted home directory

docker run -it --rm -v $HOME:/app --workdir /app -p 8787:80 -e REDIRECT_URL=http://localhost:8787 harbor.cyverse.org/vice/rstudio/geospatial:latest

Build Your Own Container

FROM harbor.cyverse.org/vice/rstudio/geospatial:latest

# Install additional R packages
RUN R -e "install.packages('your-package', repos='https://cloud.r-project.org/')"

# Install system dependencies
USER root
RUN apt-get update && apt-get install -y your-package
USER rstudio

References

• An Introduction to Rocker: Docker Containers for R - Carl Boettiger and Dirk Eddelbuettel, The R Journal (2017) 9:2, pages 527-536. https://doi.org/10.32614/RJ-2017-065

Resources

• CyVerse VICE Documentation
• Integrate Your Own Tools
• Rocker Project
• GoCommands Documentation